Query 038314
Match_columns 565
No_of_seqs 127 out of 214
Neff 3.7
Searched_HMMs 29240
Date Mon Mar 25 16:39:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038314.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/038314hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1y96_A Gemin6, SIP2, GEM-assoc 97.1 0.0017 5.8E-08 55.6 8.0 62 27-101 11-72 (86)
2 2fb7_A SM-like protein, LSM-14 97.1 0.0024 8.3E-08 55.6 9.0 74 28-102 14-90 (95)
3 2vxe_A CG10686-PA; EDC3, CAR-1 97.0 0.003 1E-07 54.4 9.3 71 30-101 10-83 (88)
4 1d3b_A Protein (small nuclear 97.0 0.003 1E-07 51.7 8.3 68 25-100 7-74 (75)
5 1th7_A SnRNP-2, small nuclear 96.9 0.0035 1.2E-07 51.7 8.6 74 20-101 6-79 (81)
6 1h64_1 SnRNP SM-like protein; 96.9 0.0016 5.6E-08 52.8 6.4 69 24-100 5-73 (75)
7 1i4k_A Putative snRNP SM-like 96.8 0.0025 8.4E-08 51.9 6.8 68 25-100 6-73 (77)
8 3s6n_F Small nuclear ribonucle 96.7 0.0036 1.2E-07 52.7 7.3 69 26-102 9-77 (86)
9 3s6n_G Small nuclear ribonucle 96.7 0.0042 1.4E-07 50.8 7.0 65 27-99 8-72 (76)
10 1b34_A Protein (small nuclear 96.6 0.0065 2.2E-07 54.0 8.7 70 24-101 3-72 (119)
11 2y9a_D Small nuclear ribonucle 96.6 0.0065 2.2E-07 54.9 8.4 69 25-101 7-75 (126)
12 1ljo_A Archaeal SM-like protei 96.5 0.0063 2.2E-07 49.6 7.3 68 25-100 7-75 (77)
13 4emk_B U6 snRNA-associated SM- 96.5 0.0048 1.6E-07 50.3 6.5 67 25-99 6-72 (75)
14 1i8f_A Putative snRNP SM-like 96.4 0.007 2.4E-07 50.0 7.0 68 24-100 12-79 (81)
15 1mgq_A SM-like protein; LSM, R 96.4 0.0071 2.4E-07 50.3 6.6 65 26-98 18-82 (83)
16 3pgw_B SM B; protein-RNA compl 96.3 0.011 3.7E-07 58.6 8.7 76 28-105 9-88 (231)
17 4emh_A Probable U6 snRNA-assoc 96.3 0.0085 2.9E-07 52.5 6.8 73 24-104 17-90 (105)
18 1d3b_B Protein (small nuclear 96.2 0.0074 2.5E-07 50.6 5.9 73 28-102 9-85 (91)
19 4emk_A U6 snRNA-associated SM- 96.1 0.018 6.3E-07 49.5 8.2 68 25-100 22-90 (94)
20 1n9r_A SMF, small nuclear ribo 96.1 0.0072 2.5E-07 51.7 5.5 69 23-99 21-90 (93)
21 1y96_B Gemin7, SIP3, GEM-assoc 95.8 0.067 2.3E-06 45.8 10.0 71 18-100 14-84 (85)
22 3bw1_A SMX4 protein, U6 snRNA- 95.7 0.029 9.9E-07 47.9 7.6 74 26-101 13-87 (96)
23 1m5q_A SMAP3, small nuclear ri 95.4 0.062 2.1E-06 48.7 9.2 68 26-105 3-70 (130)
24 4emk_C U6 snRNA-associated SM- 95.3 0.047 1.6E-06 48.3 7.6 79 20-101 21-100 (113)
25 4emg_A Probable U6 snRNA-assoc 95.1 0.047 1.6E-06 46.6 6.9 71 26-98 12-89 (93)
26 2fwk_A U6 snRNA-associated SM- 94.7 0.052 1.8E-06 48.2 6.4 76 24-101 29-113 (121)
27 4a53_A EDC3; RNA binding prote 94.2 0.5 1.7E-05 43.0 11.5 58 28-104 7-66 (125)
28 1b34_B Protein (small nuclear 93.2 0.31 1.1E-05 43.0 8.2 75 25-101 29-113 (118)
29 3s6n_E Small nuclear ribonucle 92.6 0.25 8.4E-06 42.2 6.5 66 27-99 20-89 (92)
30 2vc8_A Enhancer of mRNA-decapp 91.7 0.36 1.2E-05 41.3 6.3 63 30-102 6-69 (84)
31 1sg5_A ORF, hypothetical prote 50.4 10 0.00034 32.2 2.9 32 20-53 14-45 (86)
32 2xdp_A Lysine-specific demethy 46.8 12 0.00042 33.8 3.1 28 28-55 63-90 (123)
33 1jgn_B PAIP2, polyadenylate-bi 42.1 8 0.00027 26.2 0.8 11 348-358 5-15 (26)
34 2qqr_A JMJC domain-containing 41.0 20 0.00068 32.2 3.5 33 29-61 63-95 (118)
35 2qtx_A Uncharacterized protein 38.2 47 0.0016 27.5 5.0 32 31-65 23-54 (71)
36 1kq1_A HFQ, HOST factor for Q 36.0 52 0.0018 27.4 5.0 67 18-105 5-72 (77)
37 3ahu_A Protein HFQ; SM-like mo 35.8 83 0.0028 26.4 6.2 45 16-64 7-51 (78)
38 2ylb_A Protein HFQ; RNA-bindin 35.6 50 0.0017 27.3 4.9 43 18-64 7-49 (74)
39 1u1s_A HFQ protein; SM-like ba 33.4 56 0.0019 27.7 4.9 66 18-105 5-71 (82)
40 3sb2_A Protein HFQ; SM-like, R 31.0 65 0.0022 27.1 4.9 66 18-105 6-72 (79)
41 2y90_A Protein HFQ; RNA-bindin 30.1 59 0.002 28.7 4.7 66 18-105 7-73 (104)
42 2rm4_A CG6311-PB, DM EDC3; enh 28.8 1.7E+02 0.0059 25.7 7.2 60 30-99 9-69 (103)
43 2eqj_A Metal-response element- 28.6 76 0.0026 26.0 4.7 30 31-60 15-44 (66)
44 2e12_A SM-like motif, hypothet 23.7 1E+02 0.0034 26.9 4.8 32 20-51 14-46 (101)
45 1ib8_A Conserved protein SP14. 21.4 1.6E+02 0.0055 27.0 6.1 51 10-65 83-137 (164)
46 3hfo_A SSR3341 protein; HFQ, S 20.1 1.3E+02 0.0043 24.8 4.5 31 33-66 21-51 (70)
No 1
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=97.07 E-value=0.0017 Score=55.57 Aligned_cols=62 Identities=19% Similarity=0.149 Sum_probs=48.0
Q ss_pred HHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEEcC
Q 038314 27 ATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAKG 101 (565)
Q Consensus 27 llt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~Akd 101 (565)
-+.++||++|.|++.||..|+|+++++++.+ +.|||-.| .. ++ -....+|.+.-|..|.+.+
T Consensus 11 el~~li~KeV~V~l~dg~~y~G~l~tvDp~s-~sIvL~n~-~~-~~----------~~~~~iI~G~aI~eI~v~~ 72 (86)
T 1y96_A 11 EWQDYIYKEVRVTASEKNEYKGWVLTTDPVS-ANIVLVNF-LE-DG----------SMSVTGIMGHAVQTVETMN 72 (86)
T ss_dssp HHHHTTTCEEEEEETTTEEEEEEEEEECTTT-CCEEEEEE-CT-TS----------CEEEEEECGGGEEEEEEEE
T ss_pred HHHhhcCCEEEEEEcCCCEEEEEEEEECCCc-eEEEEeec-cc-CC----------eEEEEEEecceEEEEEEec
Confidence 3689999999999999999999999999864 78999877 11 11 1245677888888877643
No 2
>2fb7_A SM-like protein, LSM-14_N (RAP55); DR.13312, BC055387, AAH55387, stronGly BENT five-stranded antiparallel beta- sheet, structural genomics, PSI; NMR {Danio rerio} SCOP: b.38.1.5 PDB: 2vxf_A
Probab=97.06 E-value=0.0024 Score=55.60 Aligned_cols=74 Identities=18% Similarity=0.266 Sum_probs=56.8
Q ss_pred HHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccC-CCCC--CCcCCCCceeeeeeecCceEEEEEcCc
Q 038314 28 TMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKK-GKSN--ANVANGTVIETLVILSADLVQVVAKGV 102 (565)
Q Consensus 28 lt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~-G~s~--anv~sg~i~eTLVI~~kDIVqV~AkdV 102 (565)
.+..||+.+.+..|++-+|||||++.+.+ +-.|.|+..|.--. |... .-..+.++-+.++|.++||-++.+.+.
T Consensus 14 ~~~~IGs~ISLISk~dIRYeGiL~~In~~-~sTiaL~nVRsfGTEgR~~~~~ipp~~~vyeyIvFrGsDIKDL~V~e~ 90 (95)
T 2fb7_A 14 GTPYIGSKISLISKAEIRYEGILYTIDTE-NSTVALAKVRSFGTEDRPTDRPIAPRDETFEYIIFRGSDIKDLTVCEP 90 (95)
T ss_dssp --CCSSEEEEEEETTTEEEEEEEEEEETT-TTEEEEESCCCCSCCSSSCSSCCCSCCCCSSCEEECSTTEEEEEESCC
T ss_pred cCcccCCeEEEEECCCceEEEEEecccCc-cCEEEEEeeeEecccCCCCCCccCCCCcceeEEEEcCCCcceEEEecC
Confidence 36789999999999999999999999997 45899999986532 1111 112356677899999999999998654
No 3
>2vxe_A CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA decay, LSM proteins, translational repression, transcription; NMR {Drosophila melanogaster}
Probab=97.05 E-value=0.003 Score=54.36 Aligned_cols=71 Identities=13% Similarity=0.246 Sum_probs=55.3
Q ss_pred hccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccC-CCCCC--CcCCCCceeeeeeecCceEEEEEcC
Q 038314 30 CIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKK-GKSNA--NVANGTVIETLVILSADLVQVVAKG 101 (565)
Q Consensus 30 ~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~-G~s~a--nv~sg~i~eTLVI~~kDIVqV~Akd 101 (565)
-.||+.+.+..|++-+|||||++.+.+ +-.|.|+..|---. +.... -..+.++-+.++|.++||-++.+.+
T Consensus 10 ~yIGs~iSLISk~dIRYeGiL~~In~~-~sTi~L~nVrsfGTEgR~~~~~ipp~~~vy~yIvFrgsDIKdL~V~~ 83 (88)
T 2vxe_A 10 PELGSKISLISKADIRYEGRLYTVDPQ-ECTIALSSVRSFGTEDRDTQFQIAPQSQIYDYILFRGSDIKDIRVVN 83 (88)
T ss_dssp CCTTCEEEEEETTTEEEEEEEEEEETT-TTEEEEEEEEECCCTTTCCSSCCCCCCSCEEEEEEETTTEEEEEECC
T ss_pred cccCCeEEEEECCCceEEEEEeeecCc-ccEEEEEeeeEecCcCCCCCcccCCCCceeeEEEEccCCccEEEEec
Confidence 469999999999999999999999987 45799999886522 11111 1235677899999999999998643
No 4
>1d3b_A Protein (small nuclear ribonucleoprotein SM D3); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1
Probab=96.95 E-value=0.003 Score=51.74 Aligned_cols=68 Identities=13% Similarity=0.146 Sum_probs=53.6
Q ss_pred HHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEEc
Q 038314 25 LFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAK 100 (565)
Q Consensus 25 lfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~Ak 100 (565)
+-++..++|++|.|.+|||..|+|+|.+++. -+.++|+.|....++.. ..-.+.++|.++.|..|.+-
T Consensus 7 ~~~L~~~~g~~V~VeLk~g~~~~G~L~~~D~--~MNl~L~~~~e~~~~~~------~~~lg~v~IRG~nI~~i~lP 74 (75)
T 1d3b_A 7 IKVLHEAEGHIVTCETNTGEVYRGKLIEAED--NMNCQMSNITVTYRDGR------VAQLEQVYIRGCKIRFLILP 74 (75)
T ss_dssp HHHHHHTTTSEEEEEETTSCEEEEEEEEECT--TCCEEEEEEEEECTTSC------EEEEEEEEECGGGEEEEEEC
T ss_pred HHHHHHhCCCEEEEEECCCcEEEEEEEEEcc--ceeEEEEeEEEECCCCc------EEEcCeEEEeCCEEEEEEcC
Confidence 4577899999999999999999999999885 46799999988743111 11236788999999888764
No 5
>1th7_A SnRNP-2, small nuclear riboprotein protein; archaea, SM protein, SM fold, SS-SM1, RNA binding protein; 1.68A {Sulfolobus solfataricus} SCOP: b.38.1.1
Probab=96.93 E-value=0.0035 Score=51.72 Aligned_cols=74 Identities=18% Similarity=0.186 Sum_probs=57.1
Q ss_pred hHHHHHHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEE
Q 038314 20 LSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVA 99 (565)
Q Consensus 20 l~DRLlfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~A 99 (565)
+...-+-++..++|++|.|.++||..|.|+|.+++. -+.++|+.+.....+.. ..-...++|.++.|+.|..
T Consensus 6 ~~~~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~--~mNlvL~d~~e~~~~~~------~~~lg~v~iRG~~I~~i~~ 77 (81)
T 1th7_A 6 LAETAHKVLAESLNNLVLVKLKGNKEVRGMLRSYDQ--HMNLVLSDSEEIQSDGS------GKKLGTIVIRGDNVILISP 77 (81)
T ss_dssp TCHHHHHHHHHHTTSEEEEEETTTEEEEEEEEEECT--TCCEEEEEEEEECSSSC------EEEEEEEEECGGGEEEEEE
T ss_pred cccchHHHHHHhCCCeEEEEEcCCcEEEEEEEEEcC--CCCEEEccEEEEecCCc------eeECCEEEECCCEEEEEEe
Confidence 445566778899999999999999999999999985 45799999988754311 1123578899999998876
Q ss_pred cC
Q 038314 100 KG 101 (565)
Q Consensus 100 kd 101 (565)
-+
T Consensus 78 ~~ 79 (81)
T 1th7_A 78 LQ 79 (81)
T ss_dssp C-
T ss_pred cC
Confidence 43
No 6
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*
Probab=96.92 E-value=0.0016 Score=52.80 Aligned_cols=69 Identities=19% Similarity=0.236 Sum_probs=53.9
Q ss_pred HHHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEEc
Q 038314 24 LLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAK 100 (565)
Q Consensus 24 Llfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~Ak 100 (565)
-+-++..++|++|.|.++||..|.|+|.+++. -+.++|+.|.....+.. ..-...++|.++.|+.|..-
T Consensus 5 P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~--~mNlvL~d~~e~~~~~~------~~~lg~v~iRG~~I~~i~~~ 73 (75)
T 1h64_1 5 PLDVIHRSLDKDVLVILKKGFEFRGRLIGYDI--HLNVVLADAEMIQDGEV------VKRYGKIVIRGDNVLAISPT 73 (75)
T ss_dssp HHHHHHTTTTSEEEEEETTSEEEEEEEEEECT--TCCEEEEEEEEEETTEE------EEEEEEEEECGGGEEEEEEC
T ss_pred HHHHHHHHCCCEEEEEECCCCEEEEEEEEEeC--CCCeEEeeEEEEeeCCc------eeECCEEEECCCEEEEEEeC
Confidence 35567899999999999999999999999985 45799999988754211 11135788999999988753
No 7
>1i4k_A Putative snRNP SM-like protein; core snRNP domain, RNA binding protein; HET: CIT; 2.50A {Archaeoglobus fulgidus} SCOP: b.38.1.1 PDB: 1i5l_A*
Probab=96.84 E-value=0.0025 Score=51.89 Aligned_cols=68 Identities=22% Similarity=0.248 Sum_probs=53.4
Q ss_pred HHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEEc
Q 038314 25 LFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAK 100 (565)
Q Consensus 25 lfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~Ak 100 (565)
+-++..++|++|.|.++||..|.|+|.+++. -+.++|+.|.....+.. ..-...++|.++.|+.|..-
T Consensus 6 ~~~L~~~~~~~V~V~L~~g~~~~G~L~~~D~--~mNlvL~d~~e~~~~~~------~~~lg~v~iRG~~I~~i~~~ 73 (77)
T 1i4k_A 6 LDVLNRSLKSPVIVRLKGGREFRGTLDGYDI--HMNLVLLDAEEIQNGEV------VRKVGSVVIRGDTVVFVSPA 73 (77)
T ss_dssp HHHHHTTTTSEEEEEETTSCEEEEEEEEECT--TCCEEEEEEEEEETTEE------EEEEEEEEECGGGEEEEEEC
T ss_pred HHHHHHhCCCEEEEEEcCCCEEEEEEEEEcC--CCCeEEeeEEEEecCCc------EeECCEEEECCCEEEEEEeC
Confidence 4467889999999999999999999999985 46799999988754211 11135789999999988754
No 8
>3s6n_F Small nuclear ribonucleoprotein F; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_F 2y9c_F 2y9d_F 3cw1_F 3pgw_F* 2y9a_F
Probab=96.74 E-value=0.0036 Score=52.69 Aligned_cols=69 Identities=16% Similarity=0.154 Sum_probs=53.9
Q ss_pred HHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEEcCc
Q 038314 26 FATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAKGV 102 (565)
Q Consensus 26 fllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~AkdV 102 (565)
-++..++|++|.|.++||..|.|+|.+++. -+-++|+.|....++... .-...++|.++.|+.|..-|-
T Consensus 9 ~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~--~mNlvL~d~~e~~~g~~~------~~lg~v~IRG~nI~~i~~~d~ 77 (86)
T 3s6n_F 9 PFLNGLTGKPVMVKLKWGMEYKGYLVSVDG--YMNMQLANTEEYIDGALS------GHLGEVLIRCNNVLYIRGVEE 77 (86)
T ss_dssp HHHHHHTTSEEEEEETTSCEEEEEEEEECT--TCCEEEEEEEEEETTEEE------EEESSEEECGGGEEEEEECC-
T ss_pred HHHHHhCCCeEEEEEcCCeEEEEEEEEEcC--ceEEEEeeEEEEcCCcee------eEccEEEEeCCeEEEEEeCCc
Confidence 466889999999999999999999999986 357999999876443211 113578999999999987553
No 9
>3s6n_G Small nuclear ribonucleoprotein G; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_G 2y9c_G 2y9d_G 3cw1_G 3pgw_G* 2y9a_G
Probab=96.66 E-value=0.0042 Score=50.83 Aligned_cols=65 Identities=12% Similarity=0.146 Sum_probs=46.2
Q ss_pred HHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEE
Q 038314 27 ATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVA 99 (565)
Q Consensus 27 llt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~A 99 (565)
.+..++|++|.|.++||..|.|+|.+++. -+-++|+.|.....+... .-...++|.++.|+.|..
T Consensus 8 ~L~~~~~k~V~V~Lk~gr~~~G~L~~~D~--~mNlvL~~~~e~~~~~~~------~~lg~v~iRG~~I~~i~~ 72 (76)
T 3s6n_G 8 ELKKFMDKKLSLKLNGGRHVQGILRGFDP--FMNLVIDECVEMATSGQQ------NNIGMVVIRGNSIIMLEA 72 (76)
T ss_dssp ------CCEEEEEETTTEEEEEEEEEECT--TCCEEEEEEEECCCC----------CBSSEEECSSSEEEEEC
T ss_pred HHHHhCCCeEEEEECCCcEEEEEEEEECC--cceEEEeceEEEccCCcE------eEcCEEEECCCeEEEEEe
Confidence 46789999999999999999999999985 467999999886442211 113578899999998874
No 10
>1b34_A Protein (small nuclear ribonucleoprotein SM D1); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_B 2y9b_B 2y9c_B 2y9d_B 3cw1_B 3pgw_X* 3s6n_A
Probab=96.65 E-value=0.0065 Score=53.97 Aligned_cols=70 Identities=23% Similarity=0.260 Sum_probs=55.5
Q ss_pred HHHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEEcC
Q 038314 24 LLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAKG 101 (565)
Q Consensus 24 Llfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~Akd 101 (565)
++-+|..++|++|.|.++||..|.|+|.+++.- +.++|+.|.....+.. ..-...++|.++.|+.|...|
T Consensus 3 p~~~L~~~~gk~V~V~Lk~g~~~~G~L~~~D~~--MNlvL~d~~e~~~~~~------~~~lg~v~IRG~nI~~I~~pd 72 (119)
T 1b34_A 3 LVRFLMKLSHETVTIELKNGTQVHGTITGVDVS--MNTHLKAVKMTLKNRE------PVQLETLSIRGNNIRYFILPD 72 (119)
T ss_dssp HHHHHHTCTTCEEEEEETTCCEEEEEEEEECTT--CCEEEEEEEEECTTSC------CEEEEEEEECGGGEEEEECCT
T ss_pred hHHHHHHhCCCEEEEEEcCCCEEEEEEEEEccc--ceEEeccEEEecCCCc------eeEcceEEEcCCeEEEEEecc
Confidence 345678999999999999999999999999854 5799999988743211 112467899999999998655
No 11
>2y9a_D Small nuclear ribonucleoprotein SM D3; splicing-RNA complex, PRE-mRNA splicing, spliceosome, snRNP biogenesis, SM site, SM fold, heteromeric heptameric ring; 3.60A {Homo sapiens} PDB: 2y9b_D 2y9c_D 2y9d_D 3pgw_Z* 3cw1_D
Probab=96.60 E-value=0.0065 Score=54.86 Aligned_cols=69 Identities=13% Similarity=0.150 Sum_probs=55.2
Q ss_pred HHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEEcC
Q 038314 25 LFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAKG 101 (565)
Q Consensus 25 lfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~Akd 101 (565)
+-++..++|++|.|.+|||..|.|+|.+++. -+.++|+.+..+.... . ..-.+.++|.++.|..|.+.|
T Consensus 7 ~~~L~~~~gk~V~VeLknG~~~~G~L~~~D~--~MNi~L~dv~e~~~~g---~---~~~l~~v~IRGnnI~~I~lpd 75 (126)
T 2y9a_D 7 IKVLHEAEGHIVTCETNTGEVYRGKLIEAED--NMNCQMSNITVTYRDG---R---VAQLEQVYIRGSKIRFLILPD 75 (126)
T ss_dssp HHHHHSCSSCEEEEEESSCCEEEEEEEEECT--TSCEEEEEEEEECTTS---C---CEEEEEEEECGGGEEEEECCS
T ss_pred HHHHHHhCCCEEEEEECCCcEEEEEEEEEcC--ceEEEEeeEEEEcCCC---c---EeecccEEEeCCEEEEEEccc
Confidence 4577899999999999999999999999885 4679999998864211 0 112467999999999998765
No 12
>1ljo_A Archaeal SM-like protein AF-SM2; snRNP, core snRNP domain, RNA binding protein, unknown F; 1.95A {Archaeoglobus fulgidus} SCOP: b.38.1.1
Probab=96.55 E-value=0.0063 Score=49.63 Aligned_cols=68 Identities=13% Similarity=0.132 Sum_probs=53.0
Q ss_pred HHHHHhccCceEEEEEccC-CEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEEc
Q 038314 25 LFATMCIIGLPVDVYIKDG-SVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAK 100 (565)
Q Consensus 25 lfllt~LIG~~VeVtvKdG-svYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~Ak 100 (565)
+-++..++|++|.|.++|| ..|+|+|.+++.- +.++|+.|....++.. ..-...++|.++.|+.|..-
T Consensus 7 ~~~L~~~~~~~v~V~lk~g~~~~~G~L~~~D~~--mNlvL~d~~e~~~~~~------~~~lg~v~iRG~nI~~i~~~ 75 (77)
T 1ljo_A 7 NQMVKSMVGKIIRVEMKGEENQLVGKLEGVDDY--MNLYLTNAMECKGEEK------VRSLGEIVLRGNNVVLIQPQ 75 (77)
T ss_dssp HHHHHHTTTSEEEEEETTCSSEEEEEEEEECTT--CCEEEEEEEEEETTEE------EEEEEEEEECGGGEEEEEEC
T ss_pred HHHHHHHCCCEEEEEEeCCCEEEEEEEEEECCc--ceEEEeeEEEEecCCc------EeECCeEEEeCCeEEEEEeC
Confidence 3467889999999999999 9999999999853 5799999988754211 11135788999999988753
No 13
>4emk_B U6 snRNA-associated SM-like protein LSM6; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_B
Probab=96.53 E-value=0.0048 Score=50.28 Aligned_cols=67 Identities=21% Similarity=0.221 Sum_probs=52.3
Q ss_pred HHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEE
Q 038314 25 LFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVA 99 (565)
Q Consensus 25 lfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~A 99 (565)
+-++..++|++|.|.++||..|.|+|.+++. -+-++|+.|....++... .-...++|.++.|+.|..
T Consensus 6 ~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~--~mNlvL~d~~e~~~~~~~------~~lg~v~iRG~~I~~i~~ 72 (75)
T 4emk_B 6 NEFLNKVIGKKVLIRLSSGVDYKGILSCLDG--YMNLALERTEEYVNGKKT------NVYGDAFIRGNNVLYVSA 72 (75)
T ss_dssp HHHHHHTTTSEEEEECTTSCEEEEEEEEECT--TCEEEEEEEEEEETTEEE------EEEEEEEEEGGGSSEEEE
T ss_pred HHHHHHhCCCeEEEEEcCCcEEEEEEEEEcC--cceEEEccEEEEecCCcc------cEecEEEEcCCeEEEEEe
Confidence 4467889999999999999999999999986 467999999876442211 113578889999888764
No 14
>1i8f_A Putative snRNP SM-like protein; beta barrel-like SMAP monomers form 35-stranded beta-sheet I heptamer, structural genomics; 1.75A {Pyrobaculum aerophilum} SCOP: b.38.1.1 PDB: 1lnx_A*
Probab=96.44 E-value=0.007 Score=49.99 Aligned_cols=68 Identities=18% Similarity=0.137 Sum_probs=53.1
Q ss_pred HHHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEEc
Q 038314 24 LLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAK 100 (565)
Q Consensus 24 Llfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~Ak 100 (565)
-+-++..++|++|.|.++||..|.|+|.+++. -+.++|+.+... ++.. ..-...++|.++.|+.|..-
T Consensus 12 P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~--~mNlvL~d~~e~-~~~~------~~~lg~v~iRG~~I~~i~~~ 79 (81)
T 1i8f_A 12 LGATLQDSIGKQVLVKLRDSHEIRGILRSFDQ--HVNLLLEDAEEI-IDGN------VYKRGTMVVRGENVLFISPV 79 (81)
T ss_dssp HHHHHHTTTTSEEEEEEGGGEEEEEEEEEECT--TCCEEEEEEEEE-ETTE------EEEEEEEEECGGGEEEEEEC
T ss_pred hHHHHHHHCCCeEEEEEcCCcEEEEEEEEEcC--CCeeEEccEEEE-cCCc------ccCCCEEEECCCEEEEEEeC
Confidence 34556888999999999999999999999985 457999999887 3211 11235789999999988754
No 15
>1mgq_A SM-like protein; LSM, RNA-binding, archea, RNA binding protein; 1.70A {Methanothermobacterthermautotrophicus} SCOP: b.38.1.1 PDB: 1i81_A 1loj_A* 1jbm_A 1jri_A
Probab=96.36 E-value=0.0071 Score=50.27 Aligned_cols=65 Identities=18% Similarity=0.281 Sum_probs=50.5
Q ss_pred HHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEE
Q 038314 26 FATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVV 98 (565)
Q Consensus 26 fllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~ 98 (565)
-++..++|++|.|.++||..|.|+|.+++. -+.++|+.|.....+.. ..-...++|.++.|+.|.
T Consensus 18 ~~L~~~~~~~V~V~Lk~g~~~~G~L~~~D~--~mNlvL~d~~e~~~~~~------~~~lg~v~IRG~~I~~i~ 82 (83)
T 1mgq_A 18 DALGNSLNSPVIIKLKGDREFRGVLKSFDL--HMNLVLNDAEELEDGEV------TRRLGTVLIRGDNIVYIS 82 (83)
T ss_dssp HHHHHTTTSEEEEEETTTEEEEEEEEEECT--TCCEEEEEEEEEETTEE------EEEEEEEEECGGGEEEEE
T ss_pred HHHHHhCCCEEEEEEcCCcEEEEEEEEECC--CceeEEccEEEEecCCc------ccCCCEEEECCCEEEEEE
Confidence 366788999999999999999999999985 45799999988754211 111356888998888764
No 16
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_A
Probab=96.32 E-value=0.011 Score=58.57 Aligned_cols=76 Identities=17% Similarity=0.304 Sum_probs=55.1
Q ss_pred HHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccC--CCCC--CCcCCCCceeeeeeecCceEEEEEcCcc
Q 038314 28 TMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKK--GKSN--ANVANGTVIETLVILSADLVQVVAKGVQ 103 (565)
Q Consensus 28 lt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~--G~s~--anv~sg~i~eTLVI~~kDIVqV~AkdV~ 103 (565)
|..+|+++|.|+++||.+|.|+|+++|. ...+||+.+.+... .+.. .+....-....++|.++.|+.|.+.+-.
T Consensus 9 L~klIdKrV~V~LkdGRel~GtLkgFDq--~MNLVL~Da~E~~~ik~k~~k~~~~~~~R~LGlV~IRGdnIV~Isve~pP 86 (231)
T 3pgw_B 9 MLQHIDYRMRCILQDGRIFIGTFKAFDK--HMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVSMTVEGPP 86 (231)
T ss_pred HHHhcCCeEEEEECCCcEEEEEEEEEcc--cccEEecCEEEEEeccCcccccccccceeEeceEEECCCcEEEEEecCCC
Confidence 5778999999999999999999999986 45799999987532 1110 0111111235688999999999987654
Q ss_pred CC
Q 038314 104 LP 105 (565)
Q Consensus 104 Ls 105 (565)
-.
T Consensus 87 p~ 88 (231)
T 3pgw_B 87 PK 88 (231)
T ss_pred CC
Confidence 43
No 17
>4emh_A Probable U6 snRNA-associated SM-like protein LSM4; SM fold, mRNA decay, PRE-mRNA splicing, LSM proteins, RNA BI protein; 2.20A {Schizosaccharomyces pombe}
Probab=96.26 E-value=0.0085 Score=52.53 Aligned_cols=73 Identities=15% Similarity=0.165 Sum_probs=47.0
Q ss_pred HHHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEecccccc-CCCCCCCcCCCCceeeeeeecCceEEEEEcCc
Q 038314 24 LLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSK-KGKSNANVANGTVIETLVILSADLVQVVAKGV 102 (565)
Q Consensus 24 Llfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~-~G~s~anv~sg~i~eTLVI~~kDIVqV~AkdV 102 (565)
.+-++..++|.+|.|.++||..|.|+|.+++. -+.++|+.|.... +|.. ..-...++|.++.|+.|..-|-
T Consensus 17 p~~lL~~~igk~V~V~Lk~G~~~~G~L~~~D~--~MNlvL~d~~e~~~dg~~------~~~lg~v~IRG~nI~~I~~pd~ 88 (105)
T 4emh_A 17 PLTLLNATQGRPILVELKNGETFNGHLENCDN--YMNLTLREVIRTMPDGDK------FFRLPECYIRGNNIKYLRIQDE 88 (105)
T ss_dssp ---------CCEEEEEETTSCEEEEEEEEECT--TCCEEEEEEEEECTTSCE------EEEEEEEEECGGGEEEEEC---
T ss_pred HHHHHHHhCCCEEEEEECCCCEEEEEEEEEcC--CceEEEEEEEEEccCCce------eeEcCeEEEeCCeEEEEecCHH
Confidence 45567999999999999999999999999985 3579999998753 2210 1124678999999999886554
Q ss_pred cC
Q 038314 103 QL 104 (565)
Q Consensus 103 ~L 104 (565)
.+
T Consensus 89 l~ 90 (105)
T 4emh_A 89 VL 90 (105)
T ss_dssp --
T ss_pred Hh
Confidence 33
No 18
>1d3b_B Protein (small nuclear ribonucleoprotein associat B); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_A 2y9b_A 2y9c_A 2y9d_A
Probab=96.18 E-value=0.0074 Score=50.60 Aligned_cols=73 Identities=16% Similarity=0.318 Sum_probs=51.6
Q ss_pred HHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccC--CCC-CC-CcCCCCceeeeeeecCceEEEEEcCc
Q 038314 28 TMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKK--GKS-NA-NVANGTVIETLVILSADLVQVVAKGV 102 (565)
Q Consensus 28 lt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~--G~s-~a-nv~sg~i~eTLVI~~kDIVqV~AkdV 102 (565)
|..++|++|.|.++||..|.|+|.+++.. +.+||+.|..... ... .. .....--...++|.++.|+.|.+.+-
T Consensus 9 L~~~~~k~V~V~l~~gr~~~G~L~~~D~~--mNlvL~d~~E~~~~~~~~~~~~~~~~~~~lg~v~iRG~~I~~i~~~~~ 85 (91)
T 1d3b_B 9 MLQHIDYRMRCILQDGRIFIGTFKAFDKH--MNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVSMTVEGP 85 (91)
T ss_dssp CGGGTTSEEEEEETTCCEEEEEEEECCTT--CCEEEEEEEEEEEECCSSTTSCCEEEEEEEEEEEECGGGEEEEEEEEC
T ss_pred HHHHcCCcEEEEECCCeEEEEEEEEECCC--CeEEecCEEEEeeccccccccccCccEeECCEEEECCCeEEEEEcCCC
Confidence 46799999999999999999999999864 5799999987421 010 00 00001113468899999999987653
No 19
>4emk_A U6 snRNA-associated SM-like protein LSM5; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_A
Probab=96.14 E-value=0.018 Score=49.50 Aligned_cols=68 Identities=15% Similarity=0.090 Sum_probs=53.2
Q ss_pred HHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEecccccc-CCCCCCCcCCCCceeeeeeecCceEEEEEc
Q 038314 25 LFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSK-KGKSNANVANGTVIETLVILSADLVQVVAK 100 (565)
Q Consensus 25 lfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~-~G~s~anv~sg~i~eTLVI~~kDIVqV~Ak 100 (565)
+-++..++|.+|.|.++||..|.|+|.+++- -+.+||+.|.... ++.. ..-...++|.++.|+.|...
T Consensus 22 l~lL~~~l~k~V~V~Lk~gr~~~G~L~gfD~--~mNlvL~d~~E~~~~~~~------~~~lg~v~IRG~nI~~i~p~ 90 (94)
T 4emk_A 22 LELIDKCIGSNLWVIMKSEREFAGTLVGFDD--YVNIVLKDVTEYDTVTGV------TEKHSEMLLNGNGMCMLIPG 90 (94)
T ss_dssp HHHHHHTTTSEEEEEESSSEEEEEEEEEECT--TCCEEEEEEEEEETTTCC------EEEEEEEEECSTTEEEEEEC
T ss_pred HHHHHHHcCCeEEEEECCCcEEEEEEEEEcc--cCCeEeeeEEEEecCCCc------EeEcCEEEEcCCEEEEEEeC
Confidence 4567899999999999999999999999985 3579999998865 2111 11235789999999988753
No 20
>1n9r_A SMF, small nuclear ribonucleoprotein F, snRNP-F, SM protein F; heptamer, translation; 2.80A {Saccharomyces cerevisiae} SCOP: b.38.1.1 PDB: 1n9s_A
Probab=96.09 E-value=0.0072 Score=51.70 Aligned_cols=69 Identities=14% Similarity=0.170 Sum_probs=50.8
Q ss_pred HHHHHHHhccCceEEEEEccC-CEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEE
Q 038314 23 ALLFATMCIIGLPVDVYIKDG-SVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVA 99 (565)
Q Consensus 23 RLlfllt~LIG~~VeVtvKdG-svYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~A 99 (565)
..+-++..++|.+|.|.++|| ..|.|+|.+++.- +-++|+.|....++... .-...++|.++.|+.|..
T Consensus 21 ~P~~~L~~~i~k~V~V~Lk~g~~~~~G~L~~~D~~--MNlvL~d~~E~~~~~~~------~~lg~v~IRG~nI~~I~~ 90 (93)
T 1n9r_A 21 NPKPFLKGLVNHRVGVKLKFNSTEYRGTLVSTDNY--FNLQLNEAEEFVAGVSH------GTLGEIFIRCNNVLYIRE 90 (93)
T ss_dssp -----CGGGTTSEEEEEESSTTEEEEEEEEECCTT--TCEEEEEEEEEETTEEE------EECCSEEECGGGEEEEEE
T ss_pred ChHHHHHHhCCCEEEEEEcCCCEEEEEEEEEEccc--cEEEEeeEEEEcCCCeE------eEcCEEEEcCCeEEEEEe
Confidence 345567889999999999999 9999999999853 57999999887432211 113478899999988875
No 21
>1y96_B Gemin7, SIP3, GEM-associated protein 7; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=95.80 E-value=0.067 Score=45.79 Aligned_cols=71 Identities=17% Similarity=0.249 Sum_probs=53.8
Q ss_pred CChHHHHHHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEE
Q 038314 18 SSLSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQV 97 (565)
Q Consensus 18 ~sl~DRLlfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV 97 (565)
.-++||+|.+++.|+|.+|++++.++....|.|.+++.+...-+|=+ +.. . -| +.+.-++...||+.+
T Consensus 14 a~LReRfLr~l~~m~~~~v~f~m~E~t~V~a~F~a~d~d~~~f~Vs~----L~T-----P--iG-v~~eAlLR~~Dii~~ 81 (85)
T 1y96_B 14 AALRERYLRSLLAMVGHQVSFTLHEGVRVAAHFGATDLDVANFYVSQ----LQT-----P--IG-VQAEALLRCSDIISY 81 (85)
T ss_dssp HHHHHHHHHHHHHHTTSEEEEEEGGGCEEEEEEEEECTTCCEEEEEE----ECC-----T--TC-CEEEEEEEGGGEEEE
T ss_pred HHHHHHHHHHHHHhCCCceEEEEeCCeEEEEEEEecCcccceeEhhh----cCC-----C--cc-cchhhhhhcCCEEEE
Confidence 34899999999999999999999999999999999998764333322 111 1 12 244567799999988
Q ss_pred EEc
Q 038314 98 VAK 100 (565)
Q Consensus 98 ~Ak 100 (565)
.++
T Consensus 82 sF~ 84 (85)
T 1y96_B 82 TFK 84 (85)
T ss_dssp EEC
T ss_pred Eec
Confidence 763
No 22
>3bw1_A SMX4 protein, U6 snRNA-associated SM-like protein LSM3; RNA-binding protein, SM protein, ring, HOMO octamer, mRNA processing; 2.50A {Saccharomyces cerevisiae}
Probab=95.72 E-value=0.029 Score=47.95 Aligned_cols=74 Identities=12% Similarity=0.079 Sum_probs=52.6
Q ss_pred HHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcC-CCCceeeeeeecCceEEEEEcC
Q 038314 26 FATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVA-NGTVIETLVILSADLVQVVAKG 101 (565)
Q Consensus 26 fllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~-sg~i~eTLVI~~kDIVqV~Akd 101 (565)
-++..++|++|.|.++||..|.|+|.+++.- +.+||..|........+.... ..--...++|.++.|+.|..-+
T Consensus 13 ~~L~~~i~k~V~V~Lk~gr~~~G~L~~fD~~--mNlVL~d~~E~~~~~~~~~~~~~~r~lG~v~IRG~nVv~I~~~d 87 (96)
T 3bw1_A 13 DLLKLNLDERVYIKLRGARTLVGTLQAFDSH--CNIVLSDAVETIYQLNNEELSESERRCEMVFIRGDTVTLISTPS 87 (96)
T ss_dssp HHHGGGTTSEEEEEEGGGCEEEEEEEEECTT--CCEEEEEEEEEEECCSTTCCCEEEEEEEEEEECGGGEEEEECCC
T ss_pred HHHHHHCCCeEEEEECCCcEEEEEEEEECCC--CcEEEcCEEEEeccccccccCcceeEcCEEEECCCEEEEEEecC
Confidence 4568899999999999999999999999864 579999997653221110000 0011346888999999887544
No 23
>1m5q_A SMAP3, small nuclear ribonucleoprotein homolog, SM-like P; OB-like fold, B-sheet toroid, 14-MER, cadmium-binding site, translation; 2.00A {Pyrobaculum aerophilum} SCOP: b.38.1.1
Probab=95.45 E-value=0.062 Score=48.72 Aligned_cols=68 Identities=19% Similarity=0.317 Sum_probs=54.9
Q ss_pred HHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEEcCccCC
Q 038314 26 FATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAKGVQLP 105 (565)
Q Consensus 26 fllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~AkdV~Ls 105 (565)
-++..++|++|.|.++||..|.|+|.+++. -+.++|+.+..... . -...++|.++.|+.|...+-.++
T Consensus 3 ~~L~~~igk~V~V~Lk~G~~~~G~L~~~D~--~MNlvL~d~~E~~~---------~-~lg~v~IRG~nI~~I~~~d~~~d 70 (130)
T 1m5q_A 3 AELNNLLGREVQVVLSNGEVYKGVLHAVDN--QLNIVLANASNKAG---------E-KFNRVFIMYRYIVHIDSTERRID 70 (130)
T ss_dssp HHHHHTTTSEEEEEETTSCEEEEEEEEECT--TCCEEEEEEECTTC---------C-EEEEEEECGGGEEEEEECCCCCC
T ss_pred hHHHHhCCCeEEEEECCCcEEEEEEEEEcc--cceeEEeeEEEEcC---------C-EeceEEEeCCeEEEEEcCCcccC
Confidence 357889999999999999999999999985 35799999988631 1 13578999999999987665443
No 24
>4emk_C U6 snRNA-associated SM-like protein LSM7; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_C
Probab=95.28 E-value=0.047 Score=48.28 Aligned_cols=79 Identities=13% Similarity=0.138 Sum_probs=48.2
Q ss_pred hHHHHHHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCC-cCCCCceeeeeeecCceEEEE
Q 038314 20 LSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNAN-VANGTVIETLVILSADLVQVV 98 (565)
Q Consensus 20 l~DRLlfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~an-v~sg~i~eTLVI~~kDIVqV~ 98 (565)
-.+-++.| ..++|..|.|.++||..|.|+|.+++-- +-+||..|........... ....-....++|.++.|+.|.
T Consensus 21 kke~i~~L-~~~l~k~V~V~L~dGr~~~G~L~~fD~~--mNLVL~d~~E~~~~~~~~~~~~~~r~lG~v~IRG~nIv~I~ 97 (113)
T 4emk_C 21 RKESILDL-SRYQDQRIQATFTGGRQITGILKGFDQL--MNLVLDDVEEQLRNPEDGKLTGAIRKLGLVVVRGTTLVLIA 97 (113)
T ss_dssp ------------CCSEEEEEETTSCEEEEEEEEECTT--CCEEEEEEEEEC---------CCEEEEEEEEECTTTEEEEE
T ss_pred ccchHHHH-HHHcCCcEEEEEeCCeEEEEEEEEEcCc--ccEEEeeEEEEEcCCCCcccccceeEccEEEECCCeEEEEE
Confidence 34444444 6779999999999999999999999864 5799999987643211000 001112346889999999988
Q ss_pred EcC
Q 038314 99 AKG 101 (565)
Q Consensus 99 Akd 101 (565)
.-|
T Consensus 98 ~~d 100 (113)
T 4emk_C 98 PMD 100 (113)
T ss_dssp ECC
T ss_pred ecC
Confidence 644
No 25
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe}
Probab=95.14 E-value=0.047 Score=46.55 Aligned_cols=71 Identities=11% Similarity=0.039 Sum_probs=49.3
Q ss_pred HHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCC-----c--CCCCceeeeeeecCceEEEE
Q 038314 26 FATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNAN-----V--ANGTVIETLVILSADLVQVV 98 (565)
Q Consensus 26 fllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~an-----v--~sg~i~eTLVI~~kDIVqV~ 98 (565)
-++..++|+.|.|.++||..|.|+|.+++-- +.+||..|........+.+ . ...-....++|.++.|+.|.
T Consensus 12 ~lL~~~~~~~V~V~l~~gr~~~G~L~~~D~~--mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~r~lG~v~iRG~nVv~I~ 89 (93)
T 4emg_A 12 DLVRLSLDEIVYVKLRGDRELNGRLHAYDEH--LNMVLGDAEEIVTIFDDEETDKDKALKTIRKHYEMLFVRGDSVILIA 89 (93)
T ss_dssp HHHHTTTTSEEEEEETTTEEEEEEEEEECTT--CCEEEEEEEEEEC--------------CEEEEEEEEEECGGGEEEEE
T ss_pred HHHHHhCCCEEEEEECCCcEEEEEEEEECCc--ccEEeecEEEEEeccccCCccccccccccEeEeceEEECCCeEEEEE
Confidence 4567789999999999999999999999854 5799999877543211100 0 00112356888888888776
No 26
>2fwk_A U6 snRNA-associated SM-like protein LSM5; structural genomics, structural genomics consortium, SGC, DNA binding protein; 2.14A {Cryptosporidium parvum} SCOP: b.38.1.1 PDB: 3pgg_A
Probab=94.74 E-value=0.052 Score=48.24 Aligned_cols=76 Identities=18% Similarity=0.196 Sum_probs=52.7
Q ss_pred HHHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCC--CC---CCcC--C--CCceeeeeeecCce
Q 038314 24 LLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGK--SN---ANVA--N--GTVIETLVILSADL 94 (565)
Q Consensus 24 Llfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~--s~---anv~--s--g~i~eTLVI~~kDI 94 (565)
=+-++..++|.+|.|.++||..|.|+|++++-- +-+||+.+....... .+ .+.. . .--...++|.++.|
T Consensus 29 Pl~lL~~~l~k~V~V~Lk~Gr~~~G~L~~fD~~--mNlVL~d~~E~~~~~~~~~~~~~g~~~~~~~~r~lG~v~IRG~nV 106 (121)
T 2fwk_A 29 PLALIDKCIGNRIYVVMKGDKEFSGVLRGFDEY--VNMVLDDVQEYGFKADEEDISGGNKKLKRVMVNRLETILLSGNNV 106 (121)
T ss_dssp HHHHHHHTBTSBCEEEETTTEEECCEEEEECTT--CCEEEESCCEEEC---------------CEECCCCSEEEECGGGE
T ss_pred cHHHHHHHcCCeEEEEECCCcEEEEEEEEEccc--CCeEeceEEEEEeccccccccccCcccccccceEcceEEECCCEE
Confidence 345678899999999999999999999999864 579999987654210 00 0000 0 11135688899999
Q ss_pred EEEEEcC
Q 038314 95 VQVVAKG 101 (565)
Q Consensus 95 VqV~Akd 101 (565)
+.|...+
T Consensus 107 v~I~~~~ 113 (121)
T 2fwk_A 107 AMLVPGG 113 (121)
T ss_dssp EEEESSS
T ss_pred EEEEecC
Confidence 9887543
No 27
>4a53_A EDC3; RNA binding protein; NMR {Schizosaccharomyces pombe} PDB: 4a54_A
Probab=94.20 E-value=0.5 Score=42.97 Aligned_cols=58 Identities=19% Similarity=0.194 Sum_probs=44.5
Q ss_pred HHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEE--eccccccCCCCCCCcCCCCceeeeeeecCceEEEEEcCccC
Q 038314 28 TMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVL--KKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAKGVQL 104 (565)
Q Consensus 28 lt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVL--K~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~AkdV~L 104 (565)
++-.+|..|+|+++||.+|.|+...++.. .++| +.|..- ..-|..+||.++.+-.+.-
T Consensus 7 ~sqFlGy~V~v~LkDgs~~qG~I~~vd~k---~LtL~~~~a~~s----------------~~~I~asdI~DLkVl~~~~ 66 (125)
T 4a53_A 7 VADFYGSNVEVLLNNDSKARGVITNFDSS---NSILQLRLANDS----------------TKSIVTKDIKDLRILPKNE 66 (125)
T ss_dssp HHHHTTCEEEEEETTSCEEEEEEEEEETT---TTEEEEEETTTE----------------EEEEEGGGEEEEEECCSCC
T ss_pred HHHhcCceEEEEECCCCEeeEEEEeecCC---eeEEeccccccc----------------cceeecccccceeeeeccc
Confidence 35579999999999999999999998754 4777 666321 2278999999998755433
No 28
>1b34_B Protein (small nuclear ribonucleoprotein SM D2); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_C 2y9b_C 2y9c_C 2y9d_C 3cw1_C 3pgw_Y* 3s6n_B
Probab=93.17 E-value=0.31 Score=43.02 Aligned_cols=75 Identities=12% Similarity=0.115 Sum_probs=50.2
Q ss_pred HHHHHhcc--CceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCC-C-------cCCCCceeeeeeecCce
Q 038314 25 LFATMCII--GLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNA-N-------VANGTVIETLVILSADL 94 (565)
Q Consensus 25 lfllt~LI--G~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~a-n-------v~sg~i~eTLVI~~kDI 94 (565)
+-++..++ |..|.|.++||..|.|+|.+++-- +.+||..+.......... . ....-....++|.++.|
T Consensus 29 l~lL~~~~~~~k~V~V~Lk~gr~~~G~L~~fD~~--mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~nV 106 (118)
T 1b34_B 29 LSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRH--CNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSV 106 (118)
T ss_dssp HHHHHHHHHHTCEEEEEETTSCEEEEEEEEECTT--CCEEEEEEEEC-------------------CEEEEEEEECGGGE
T ss_pred HHHHHHHhcCCcEEEEEECCCcEEEEEEEEeCCc--eEEEEeCEEEEEecccccccccccccccccccCcCeEEEcCCEE
Confidence 33556666 699999999999999999999854 579999998753221110 0 00011245789999999
Q ss_pred EEEEEcC
Q 038314 95 VQVVAKG 101 (565)
Q Consensus 95 VqV~Akd 101 (565)
+.|...+
T Consensus 107 v~I~~~~ 113 (118)
T 1b34_B 107 IVVLRNP 113 (118)
T ss_dssp EEEEECC
T ss_pred EEEEeCc
Confidence 9887643
No 29
>3s6n_E Small nuclear ribonucleoprotein E; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_E 2y9c_E 2y9d_E 3cw1_E 3pgw_E* 2y9a_E
Probab=92.60 E-value=0.25 Score=42.22 Aligned_cols=66 Identities=6% Similarity=0.067 Sum_probs=50.0
Q ss_pred HHHhccCceEEEEE----ccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEE
Q 038314 27 ATMCIIGLPVDVYI----KDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVA 99 (565)
Q Consensus 27 llt~LIG~~VeVtv----KdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~A 99 (565)
++...+|++|.|++ +||..|.|+|.+++.- +.+||..|........ ...-...++|.++.|+.|..
T Consensus 20 lL~~~l~~~v~V~l~~~~~~gr~~~G~L~gfD~~--mNlvL~d~~E~~~~~~-----~~~~lg~v~iRG~nV~~i~~ 89 (92)
T 3s6n_E 20 LIFRYLQNRSRIQVWLYEQVNMRIEGCIIGFDEY--MNLVLDDAEEIHSKTK-----SRKQLGRIMLKGDNITLLQS 89 (92)
T ss_dssp HHHHHHHHTCEEEEEESSSCSSEEEEEEEEECTT--CCEEEEEEEEECSSSC-----CEEEEEEEEECGGGEEEEEE
T ss_pred HHHHHhCCCEEEEEEEEecCCEEEEEEEEEEcCc--CcEEEeeeEEEecCCC-----ceeEcCeEEEeCCEEEEEEe
Confidence 45778899999999 9999999999999853 5799999987642110 01113568889999988875
No 30
>2vc8_A Enhancer of mRNA-decapping protein 3; P-BODY component, cytoplasm, SM-like protein, protein-binding; 1.31A {Homo sapiens}
Probab=91.66 E-value=0.36 Score=41.28 Aligned_cols=63 Identities=16% Similarity=0.225 Sum_probs=48.2
Q ss_pred hccCceEEEEEccCC-EEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEEcCc
Q 038314 30 CIIGLPVDVYIKDGS-VYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAKGV 102 (565)
Q Consensus 30 ~LIG~~VeVtvKdGs-vYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~AkdV 102 (565)
..||+.|.|+.+|+- +|+|+++..+... -.|+|..| .++|.-. ...-.+|.++||-.+.+-..
T Consensus 6 ~~iGs~VSi~c~d~lGvYQG~i~~vd~~~-~tItL~~~--f~NG~~~-------~s~eVtls~~DI~~L~ii~~ 69 (84)
T 2vc8_A 6 DWLGSIVSINCGDSLGVYQGRVSAVDQVS-QTISLTRP--FHNGVKC-------LVPEVTFRAGDITELKILEI 69 (84)
T ss_dssp TTTTCEEEEECCTTTCEEEEEEEEEETTT-TEEEEEEE--EETTEEC-------SSSEEEEEGGGCSEEEEEEC
T ss_pred cccCCEEEEEECCCceEEEEEEEEeccCC-CeEEEehh--hhCCCCC-------CCcEEEEEecChhheEEEec
Confidence 579999999999999 9999999999763 36888777 4555411 12348899999998887443
No 31
>1sg5_A ORF, hypothetical protein; A+B protein, montreal-kingston bacterial structural genomics initiative, BSGI, structural genomics, transcription; NMR {Escherichia coli} SCOP: b.137.1.2
Probab=50.36 E-value=10 Score=32.19 Aligned_cols=32 Identities=19% Similarity=0.139 Sum_probs=26.8
Q ss_pred hHHHHHHHHHhccCceEEEEEccCCEEEEEEEee
Q 038314 20 LSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTA 53 (565)
Q Consensus 20 l~DRLlfllt~LIG~~VeVtvKdGsvYeGIF~Ta 53 (565)
..|.|. ++|+-+.+|.|++|||..++|+...+
T Consensus 14 ~yD~LE--lAc~~~~~l~l~l~dGe~~~g~a~D~ 45 (86)
T 1sg5_A 14 DYDNLE--LACQHHLMLTLELKDGEKLQAKASDL 45 (86)
T ss_dssp SHHHHH--HHHTTTTCEEEECTTTCCEEESSCEE
T ss_pred hhhHHH--HHHHcCCeEEEEEeCCCEEEEEEEee
Confidence 456655 46899999999999999999988775
No 32
>2xdp_A Lysine-specific demethylase 4C; oxidoreductase, histone modification; 1.56A {Homo sapiens}
Probab=46.81 E-value=12 Score=33.76 Aligned_cols=28 Identities=21% Similarity=0.348 Sum_probs=24.3
Q ss_pred HHhccCceEEEEEccCCEEEEEEEeecc
Q 038314 28 TMCIIGLPVDVYIKDGSVYSGIFYTASV 55 (565)
Q Consensus 28 lt~LIG~~VeVtvKdGsvYeGIF~TaS~ 55 (565)
-.=..|..|+|.-.||.+|.|+|.+.+.
T Consensus 63 GpP~~G~~V~V~W~DG~~y~a~f~g~~~ 90 (123)
T 2xdp_A 63 GPPAEGEVVQVKWPDGKLYGAKYFGSNI 90 (123)
T ss_dssp CCCCTTCEEEEECTTSCEEEEEEEEEEE
T ss_pred CCCCCCCEEEEEcCCCCEEeEEEeeeee
Confidence 3446899999999999999999999764
No 33
>1jgn_B PAIP2, polyadenylate-binding protein-interacting protein 2; all-helical domain, protein-peptide complex, RNA binding protein; NMR {Homo sapiens}
Probab=42.08 E-value=8 Score=26.22 Aligned_cols=11 Identities=64% Similarity=1.002 Sum_probs=6.4
Q ss_pred ccCCCCeeecC
Q 038314 348 KLNPGAKIFSP 358 (565)
Q Consensus 348 KLNP~Ak~fsP 358 (565)
.|||+||-|-|
T Consensus 5 ~lnp~akef~p 15 (26)
T 1jgn_B 5 NLNPNAKEFVP 15 (26)
T ss_dssp SSCTTCCCCCT
T ss_pred cCCcchhhcCC
Confidence 45666666655
No 34
>2qqr_A JMJC domain-containing histone demethylation protein 3A; histone lysine demethylase, tandem hybrid tudor domains, metal binding protein; 1.80A {Homo sapiens} SCOP: b.34.9.1 b.34.9.1 PDB: 2qqs_A* 2gfa_A* 2gf7_A*
Probab=41.03 E-value=20 Score=32.17 Aligned_cols=33 Identities=27% Similarity=0.304 Sum_probs=26.0
Q ss_pred HhccCceEEEEEccCCEEEEEEEeeccCCCeeE
Q 038314 29 MCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGI 61 (565)
Q Consensus 29 t~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gV 61 (565)
.=..|..|.|.-+||.+|.++|.+.+.-..+.|
T Consensus 63 pP~~G~~V~V~W~DG~~y~a~f~g~~~~~~Y~V 95 (118)
T 2qqr_A 63 PPAEGEVVQVRWTDGQVYGAKFVASHPIQMYQV 95 (118)
T ss_dssp CCCTTCEEEEECTTSCEEEEEEEEEEEEEEEEE
T ss_pred CCCCCCEEEEEcCCCCEeeeEEeceeEEEEEEE
Confidence 446799999999999999999998664333444
No 35
>2qtx_A Uncharacterized protein MJ1435; HFQ, SM, RNA-binding protein, sRNA, translational regulation, RNA binding protein; 2.50A {Methanocaldococcus jannaschii}
Probab=38.22 E-value=47 Score=27.46 Aligned_cols=32 Identities=25% Similarity=0.518 Sum_probs=26.8
Q ss_pred ccCceEEEEEccCCEEEEEEEeeccCCCeeEEEec
Q 038314 31 IIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKK 65 (565)
Q Consensus 31 LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~ 65 (565)
.-+.+|+|.+.||.+..|...+++ .|.|.|+.
T Consensus 23 ~~~~~Vtv~L~NG~~l~G~I~~fD---~ftVll~~ 54 (71)
T 2qtx_A 23 LNGKKVKIFLRNGEVLDAEVTGVS---NYEIMVKV 54 (71)
T ss_dssp GTTCEEEEEETTSCEEEEEEEEEC---SSEEEEEE
T ss_pred HcCCcEEEEEeCCeEEEEEEEEEc---ceEEEEEe
Confidence 457789999999999999999988 47777753
No 36
>1kq1_A HFQ, HOST factor for Q beta; hexamer, RNA binding protein, translational regulator, SM motif; 1.55A {Staphylococcus aureus} SCOP: b.38.1.2 PDB: 1kq2_A
Probab=35.98 E-value=52 Score=27.44 Aligned_cols=67 Identities=15% Similarity=0.179 Sum_probs=41.2
Q ss_pred CChHHHHHHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEE
Q 038314 18 SSLSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQV 97 (565)
Q Consensus 18 ~sl~DRLlfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV 97 (565)
..+.|.++-.+ --=+.+|+|.+.||.+..|...+++. |.|.|+. .| ...+|.-..|..|
T Consensus 5 ~~lQd~fLn~l-rk~k~~VtI~L~nG~~l~G~I~~fD~---f~VlL~~-----~g------------~~qLIYKhAISTI 63 (77)
T 1kq1_A 5 ENIQDKALENF-KANQTEVTVFFLNGFQMKGVIEEYDK---YVVSLNS-----QG------------KQHLIYKHAISTY 63 (77)
T ss_dssp -CHHHHHHHHH-HHHTCEEEEEETTSCEEEEEEEEECS---SEEEEEE-----TT------------EEEEEEGGGEEEE
T ss_pred cccHHHHHHHH-HhcCCeEEEEEeCCCEEEEEEEEECC---cEEEEEE-----CC------------eeEEEEeeeEEEE
Confidence 35666655443 22378999999999999999999984 7788863 11 2345566667776
Q ss_pred E-EcCccCC
Q 038314 98 V-AKGVQLP 105 (565)
Q Consensus 98 ~-AkdV~Ls 105 (565)
. ++.|++.
T Consensus 64 ~p~~~v~~~ 72 (77)
T 1kq1_A 64 TVETEGQAS 72 (77)
T ss_dssp EC-------
T ss_pred eECcccccc
Confidence 6 3455443
No 37
>3ahu_A Protein HFQ; SM-like motif, protein-RNA complex, translation-RNA complex; 2.20A {Bacillus subtilis} PDB: 3hsb_A
Probab=35.80 E-value=83 Score=26.39 Aligned_cols=45 Identities=13% Similarity=0.223 Sum_probs=34.1
Q ss_pred CCCChHHHHHHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEe
Q 038314 16 NSSSLSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLK 64 (565)
Q Consensus 16 ~~~sl~DRLlfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK 64 (565)
.+..+.|.++-.+ --=+.+|+|.+.||.+..|...+++ .|.|.|+
T Consensus 7 ~~~nlQd~fLn~l-rk~~~~Vtv~L~nG~~l~G~I~~fD---~f~VlL~ 51 (78)
T 3ahu_A 7 KPINIQDQFLNQI-RKENTYVTVFLLNGFQLRGQVKGFD---NFTVLLE 51 (78)
T ss_dssp ---CHHHHHHHHH-HHHTCCEEEEETTSCEEEEEEEEEC---SSEEEEE
T ss_pred cccChHHHHHHHH-HHcCCcEEEEEeCCeEEEEEEEEEc---ceEEEEE
Confidence 3456777777654 2347899999999999999999998 4778876
No 38
>2ylb_A Protein HFQ; RNA-binding protein, LSM protein, RNA chaperone; 1.15A {Salmonella enterica subsp} PDB: 2yht_A 1hk9_A 2ylc_A* 3gib_A* 3rer_A* 3qo3_A* 3res_A*
Probab=35.63 E-value=50 Score=27.29 Aligned_cols=43 Identities=28% Similarity=0.405 Sum_probs=32.1
Q ss_pred CChHHHHHHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEe
Q 038314 18 SSLSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLK 64 (565)
Q Consensus 18 ~sl~DRLlfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK 64 (565)
..+.|.++-.+ .-=+.+|+|.+.||.+.+|....+|. |.|.|+
T Consensus 7 ~~lQd~~L~~l-rk~k~~Vti~L~nG~~l~G~I~~fD~---f~vlL~ 49 (74)
T 2ylb_A 7 QSLQDPFLNAL-RRERVPVSIYLVNGIKLQGQIESFDQ---FVILLK 49 (74)
T ss_dssp -CCHHHHHHHH-HHHTCCEEEEETTSCEEEEEEEEECS---SEEEEE
T ss_pred cccHHHHHHHH-HhcCCcEEEEEeCCCEEEEEEEEECC---cEEEEE
Confidence 34556655432 22378999999999999999999984 678887
No 39
>1u1s_A HFQ protein; SM-like bacterial protein, riken structural genomics/proteomics initiative, RSGI, structural genomics, RNA binding protein; 1.60A {Pseudomonas aeruginosa} SCOP: b.38.1.2 PDB: 1u1t_A 3qui_A* 3m4g_A 3inz_A
Probab=33.42 E-value=56 Score=27.72 Aligned_cols=66 Identities=24% Similarity=0.410 Sum_probs=45.4
Q ss_pred CChHHHHHHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEE
Q 038314 18 SSLSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQV 97 (565)
Q Consensus 18 ~sl~DRLlfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV 97 (565)
..+.|.++-.+ --=+.+|+|.+.||.+..|...+++ .|.|.|+.. ...+|.-..|-.|
T Consensus 5 ~nlQd~fLn~l-rk~~~~Vtv~L~NG~~l~G~I~~fD---~ftVlL~~~------------------~qqLVYKHAISTI 62 (82)
T 1u1s_A 5 HSLQDPYLNTL-RKERVPVSIYLVNGIKLQGQIESFD---QFVILLKNT------------------VSQMVYKHAISTV 62 (82)
T ss_dssp -CCHHHHHHHH-HHTTCCEEEEETTSCEEEEEEEEEC---SSEEEEESS------------------SCEEEEGGGEEEE
T ss_pred cchHHHHHHHH-HHcCCcEEEEEeCCcEEEEEEEEEc---ceEEEEecC------------------ceEEEEeeeeEEE
Confidence 35566665553 3347899999999999999999998 478888721 1234555667766
Q ss_pred E-EcCccCC
Q 038314 98 V-AKGVQLP 105 (565)
Q Consensus 98 ~-AkdV~Ls 105 (565)
. ++.|+|.
T Consensus 63 ~p~~~v~l~ 71 (82)
T 1u1s_A 63 VPSRPVRLP 71 (82)
T ss_dssp EESSCCCCC
T ss_pred eeccccccc
Confidence 6 5666665
No 40
>3sb2_A Protein HFQ; SM-like, RNA chaperone, chaperone; 2.63A {Herbaspirillum seropedicae} SCOP: b.38.1.2
Probab=31.00 E-value=65 Score=27.06 Aligned_cols=66 Identities=24% Similarity=0.373 Sum_probs=45.1
Q ss_pred CChHHHHHHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEE
Q 038314 18 SSLSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQV 97 (565)
Q Consensus 18 ~sl~DRLlfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV 97 (565)
..+.|.++-.+. --..+|+|.+.||.+..|...+++. |.|.|+ +|. ..+|.-.-|..|
T Consensus 6 ~nlQd~fLn~lr-k~k~~VtI~LvnG~~L~G~I~~fD~---f~VlL~------~g~------------~qLIYKhAISTI 63 (79)
T 3sb2_A 6 QLLQDPFLNALR-KEHVPVSIYLVNGIKLQGHVESFDQ---YVVLLR------NTV------------TQMVYKHAISTV 63 (79)
T ss_dssp CTTHHHHHHHHH-HTTCCEEEEETTSCEEEEEEEEECS---SEEEEE------SSS------------EEEEEGGGEEEE
T ss_pred cchHHHHHHHHH-hcCCeEEEEEeCCCEEEEEEEEECC---cEEEEE------CCc------------eEEEEeeeEEEE
Confidence 456666665533 3467899999999999999999984 778883 211 335556667776
Q ss_pred E-EcCccCC
Q 038314 98 V-AKGVQLP 105 (565)
Q Consensus 98 ~-AkdV~Ls 105 (565)
. ++.|++.
T Consensus 64 ~P~~~v~~~ 72 (79)
T 3sb2_A 64 VPARAVNLS 72 (79)
T ss_dssp EESSCCCCC
T ss_pred eecCceecc
Confidence 6 4456654
No 41
>2y90_A Protein HFQ; RNA-binding protein, SM-like, RNA chaperone; 2.25A {Escherichia coli} PDB: 3qhs_A
Probab=30.11 E-value=59 Score=28.67 Aligned_cols=66 Identities=23% Similarity=0.350 Sum_probs=43.6
Q ss_pred CChHHHHHHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEE
Q 038314 18 SSLSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQV 97 (565)
Q Consensus 18 ~sl~DRLlfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV 97 (565)
..+.|.++-.+ .--..+|+|.+.||.+..|....++ .|.|.|+.. ...+|.-..|..|
T Consensus 7 ~nlQd~fLn~l-rk~k~~VtI~LvNG~~L~G~I~~fD---~f~VlL~~~------------------kqqLIYKHAISTI 64 (104)
T 2y90_A 7 QSLQDPFLNAL-RRERVPVSIYLVNGIKLQGQIESFD---QFVILLKNT------------------VSQMVYKHAISTV 64 (104)
T ss_dssp -CCHHHHHHHH-HHTTCCEEEEETTSCEEEEEEEEEC---SSEEEEESS------------------SEEEEEGGGEEEE
T ss_pred cccHHHHHHHH-HhcCCcEEEEEeCCCEEEEEEEEEC---CcEEEEECC------------------ceEEEEeeeeEEE
Confidence 35666665543 2335589999999999999999998 478888722 1345566677777
Q ss_pred E-EcCccCC
Q 038314 98 V-AKGVQLP 105 (565)
Q Consensus 98 ~-AkdV~Ls 105 (565)
. ++.|++.
T Consensus 65 ~p~~~v~l~ 73 (104)
T 2y90_A 65 VPSRPVSHH 73 (104)
T ss_dssp EESSCCC--
T ss_pred eeccccccc
Confidence 6 4456554
No 42
>2rm4_A CG6311-PB, DM EDC3; enhancer of mRNA decapping, P-BODY component, SM-like protein,, protein binding; NMR {Drosophila melanogaster}
Probab=28.83 E-value=1.7e+02 Score=25.70 Aligned_cols=60 Identities=20% Similarity=0.232 Sum_probs=43.1
Q ss_pred hccCceEEEEEccCC-EEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEE
Q 038314 30 CIIGLPVDVYIKDGS-VYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVA 99 (565)
Q Consensus 30 ~LIG~~VeVtvKdGs-vYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~A 99 (565)
..||..|.|+..+-- +|.|.....+.. .|+|+.|=+ +|- ..........+..+||..+.+
T Consensus 9 dwiG~~VSI~C~d~LGVyQG~I~~V~~~---~ItL~kaFr--NGi-----plk~~~~EVtLsa~DI~~L~I 69 (103)
T 2rm4_A 9 DWIGCAVSIACDEVLGVFQGLIKQISAE---EITIVRAFR--NGV-----PLRKQNAEVVLKCTDIRSIDL 69 (103)
T ss_dssp GGTTCEEEEEECTTTCEEEEEEEEEETT---EEEEEEEEE--TTE-----ECSCSSSCEEEETTTEEEEEE
T ss_pred ceeceEEEEeeCCcceEeeEEEEEcccc---eeEEhhhhh--cCc-----CcCCCCceEEEEecchhheee
Confidence 468999999998877 999999999854 388877743 322 011123457888999988875
No 43
>2eqj_A Metal-response element-binding transcription factor 2; structure genomics,tudor domain, zinc-regulated factor 1, ZIRF1; NMR {Mus musculus}
Probab=28.65 E-value=76 Score=25.99 Aligned_cols=30 Identities=23% Similarity=0.174 Sum_probs=25.8
Q ss_pred ccCceEEEEEccCCEEEEEEEeeccCCCee
Q 038314 31 IIGLPVDVYIKDGSVYSGIFYTASVEKDYG 60 (565)
Q Consensus 31 LIG~~VeVtvKdGsvYeGIF~TaS~e~d~g 60 (565)
-+|..|-.+-+||--|+|.....+...+..
T Consensus 15 ~vGddVLA~wtDGl~Y~gtI~~V~~~~gtC 44 (66)
T 2eqj_A 15 EEGQDVLARWSDGLFYLGTIKKINILKQSC 44 (66)
T ss_dssp CTTCEEEEECTTSCEEEEEEEEEETTTTEE
T ss_pred cCCCEEEEEEccCcEEEeEEEEEccCCcEE
Confidence 489999999999999999999988765433
No 44
>2e12_A SM-like motif, hypothetical protein XCC3642; novel SM-like motif, LSM motif, X- RAY crystallography, translation; 1.70A {Xanthomonas campestris PV}
Probab=23.70 E-value=1e+02 Score=26.90 Aligned_cols=32 Identities=22% Similarity=0.222 Sum_probs=27.6
Q ss_pred hHHHHHHHHHhccCc-eEEEEEccCCEEEEEEE
Q 038314 20 LSEALLFATMCIIGL-PVDVYIKDGSVYSGIFY 51 (565)
Q Consensus 20 l~DRLlfllt~LIG~-~VeVtvKdGsvYeGIF~ 51 (565)
--+||..++.-|=|. .|++++.||++..|.+.
T Consensus 14 qIa~Le~~~~~LdGq~~v~i~l~DGs~l~GTva 46 (101)
T 2e12_A 14 QIATLEHWVKLLDGQERVRIELDDGSMIAGTVA 46 (101)
T ss_dssp HHHHHHHHHHTSCTTCEEEEEETTSCEEEEEES
T ss_pred HHHHHHHHHHhhCCeeEEEEEEcCCCeEeeeec
Confidence 347899999999886 69999999999999765
No 45
>1ib8_A Conserved protein SP14.3; nucleic acid binding protein, ribosomal protein, essential gene, structural genomics; NMR {Streptococcus pneumoniae} SCOP: b.38.2.1 d.52.4.1
Probab=21.41 E-value=1.6e+02 Score=27.04 Aligned_cols=51 Identities=16% Similarity=0.199 Sum_probs=33.3
Q ss_pred cccCCCCCCChHHHHHHHHHhccCceEEEEEc---cC-CEEEEEEEeeccCCCeeEEEec
Q 038314 10 ETTHSNNSSSLSEALLFATMCIIGLPVDVYIK---DG-SVYSGIFYTASVEKDYGIVLKK 65 (565)
Q Consensus 10 ~~~~~~~~~sl~DRLlfllt~LIG~~VeVtvK---dG-svYeGIF~TaS~e~d~gVVLK~ 65 (565)
|.+++--.+.|...=-| ...+|..|.|+++ +| ..|+|++.+++-+ .|+|..
T Consensus 83 EVSSPGldRpL~~~~df--~r~~G~~V~V~l~~~~~g~k~~~G~L~~~~~~---~v~l~~ 137 (164)
T 1ib8_A 83 EITSPGLERPLKTKDAV--AGAVGKYIHVGLYQAIDKQKVFEGTLLAFEED---ELTMEY 137 (164)
T ss_dssp EEECCSSSSCCSSHHHH--HHHCSEEEEEECSSCSSSCSEEEEEEEEEETT---EEEEEE
T ss_pred EEeCCCCCCCCCCHHHH--HHhCCcEEEEEEecccCCceEEEEEEEEEeCC---EEEEEE
Confidence 44444444444433333 4679999999994 45 8899999998754 465554
No 46
>3hfo_A SSR3341 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 1.30A {Synechocystis SP}
Probab=20.12 E-value=1.3e+02 Score=24.82 Aligned_cols=31 Identities=19% Similarity=0.321 Sum_probs=26.0
Q ss_pred CceEEEEEccCCEEEEEEEeeccCCCeeEEEecc
Q 038314 33 GLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKA 66 (565)
Q Consensus 33 G~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~A 66 (565)
..+|+|.+.+|.+++|.+.-.+.+ .+.|+-+
T Consensus 21 k~~V~I~L~tG~~l~G~i~WQD~~---cl~L~~~ 51 (70)
T 3hfo_A 21 QTPVEIKLLTGDSLFGTIRWQDTD---GLGLVDD 51 (70)
T ss_dssp TCEEEEEETTSCEEEEEEEEECSS---EEEEECT
T ss_pred CceEEEEecCCCEEEEEEEEeCCC---EEEEEcC
Confidence 468999999999999999999874 5777643
Done!